Lineage breakdown
Bethany Dearlove and Morgane Rolland
Alignment updated: 2022-06-16
Last run: 2022-06-17
Notes
- Lineages are grouped in the menu according to the variant classifications on the US Centers for Disease Control and Prevention (CDC) website; designations from the World Health Organisation (WHO), European Centre for Disease Prevention and Control (ECDC) and UK Health Security Agency (UKHSA) are also shown for reference.
- VOC - Variant of Concern
- VOI - Variant of Interest
- VUI - Variant Under Investigation
- VBM - Variant Being Monitored
- VUM - Variant Under Monitoring
- The situation with SARS-CoV-2 is constantly changing. The numbers given here reflect the most recent three months of sequences available as of 16th June 2022, and not the number of cases or prevalence. There are a number of potential sources of bias, including, but not limited to:
- changing lineage definitions
- QC rejections, e.g. due to frameshifts
- unidentified non-independent sequences.
- Non-synonymous mutations are defined against WIV04 as a reference sequence. Insertions are not currently considered.
- Mutation frequencies only count those with a known amino acid or gap (denoted “-”), and exclude the ambiguous “X”.
- Caution should be taken in interpreting data where sequence numbers are low, especially in the most recent past which is particularly liable to be impacted by the lag between sampling and sequencing.
Variants of Concern
B.1.1.529 - Omicron
CDC:VOC WHO:VOC ECDC:VOC UKHSA:VOC
Global
Sequencefrequency
There are a total of 252,653 B.1.1.529 lineage sequences in the alignment, with 95 sublineages. These breakdown as: 166 B.1.1.529, 627 BA.1, 14,524 BA.1.1, 574 BA.1.1.1, 150 BA.1.1.2, 1 BA.1.1.3, 6 BA.1.1.4, 10 BA.1.1.7, 2 BA.1.1.8, 1 BA.1.1.9, 114 BA.1.1.10, 22 BA.1.1.11, 8 BA.1.1.13, 156 BA.1.1.14, 36 BA.1.1.15, 86 BA.1.1.16, 6 BA.1.1.17, 725 BA.1.1.18, 1 BA.1.3, 2 BA.1.6, 2 BA.1.7, 2 BA.1.8, 1 BA.1.9, 1 BA.1.10, 3 BA.1.12, 6 BA.1.13, 2 BA.1.13.1, 5 BA.1.14, 2 BA.1.14.1, 578 BA.1.15, 13 BA.1.15.1, 99 BA.1.15.2, 2 BA.1.16, 85 BA.1.17, 222 BA.1.17.2, 356 BA.1.18, 8 BA.1.19, 157 BA.1.20, 16 BA.1.21, 102,011 BA.2, 724 BA.2.1, 13 BA.2.2, 15,037 BA.2.3, 112 BA.2.3.1, 103 BA.2.3.2, 335 BA.2.3.4, 63 BA.2.4, 430 BA.2.5, 266 BA.2.6, 1,965 BA.2.7, 119 BA.2.8, 19,906 BA.2.9, 11 BA.2.9.1, 266 BA.2.9.2, 2,820 BA.2.10, 522 BA.2.10.1, 17 BA.2.10.2, 68 BA.2.11, 1,618 BA.2.12, 73,646 BA.2.12.1, 907 BA.2.13, 45 BA.2.14, 5 BA.2.15, 1 BA.2.16, 60 BA.2.17, 1,184 BA.2.18, 96 BA.2.19, 392 BA.2.20, 668 BA.2.21, 54 BA.2.22, 599 BA.2.23, 303 BA.2.23.1, 68 BA.2.24, 33 BA.2.25, 38 BA.2.25.1, 699 BA.2.26, 5 BA.2.27, 42 BA.2.28, 172 BA.2.29, 14 BA.2.30, 476 BA.2.31, 354 BA.2.32, 17 BA.2.34, 4 BA.2.35, 559 BA.2.36, 670 BA.2.37, 681 BA.2.38, 23 BA.2.39, 180 BA.2.40.1, 111 BA.2.41, 3 BA.3, 15 BA.3.1, 2,371 BA.4, 2,965 BA.5 and 10 BA.5.1.
